Metadata on the image is as follows: f/5.6, 1/100, ISO-100, exposure bias 0 step, metering mode "pattern", aka "matrix", exposure program "Manual". Again, estimated distance to subject about 5 feet, and estimated depth of the fungus about 5 or 6 inches. Next time I will take the shot with my 70-200; I know exactly where this subject is at.
The discussion in this thread is informative. The image posted by the OP is cropped from the 2:3 ratio of the full frame sensor. Assuming that it was cropped in the horizontal direction and leaving the vertical dimension intact, I calculate that the fungus measuring 7 inches in the horizontal plane would occupy about 0.88 inches on the sensor, giving a magnification of about 0.125 or about 1:8. This may be off, but will be good enough for the discussion.
The usual depth of field calculations and tables for a full frame sensor assume a circle of confusion of 30 microns. This is for an 8 by 10 inch print viewed at 10 inches for an observer with manufacturer assumed visual acuity. This is from the PhotoPills DOF app. For 20/20 vision, the COF shrinks to 9 microns according to the app. Standard DOF assumptions are very lenient, and DOF with critical viewing is considerably smaller.
Rik Littlefield, the author of Zerene Stacker, has another way to calculate DOF. He uses magnification which eliminates focal length as a factor, since for a given magnification DOF is independent of the focal length. If the OP had framed the image the same with a 200 mm lens at f/5.6, the DOF would be the same as with the zoom lens at 48 mm. However, the perspective would be different.
Look at Table 2-B of Rik's
article. For a magnification of 0.125 the DOF would be between 3.5 and 6.9 centimeters at f/5.6 (1.4 and 1.7 inches respectively). Using the equation shown below the table, this works out to be 4.4 cm. This DOF could be achieved only with stacking. For manual stacking one could measure the depth of the fungus (about 6 inches according to the OP) and focus from front to back stepping in somewhat smaller increments to allow some overlap until the far end of the fungus is reached.
This is pretty involved, but with the "focus shift" capability of the D780 this could be automated and accomplished in less than a minute. Steve's Deep Focus Techniques supplement to his autofocus for Nikon e-book has an excellent discussion of focus shift with Nikons as well as explanations of hyperfocal focusing and other DOF topics discussed in this thread.
This is a rather long post, but I hope it will help with using DOF in practical work.
Cheers,
Bill